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List of works by Amrita Pati

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A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

scientific article
GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes

scientific article
A catalog of reference genomes from the human microbiome

scientific article
IMG 4 version of the integrated microbial genomes comparative analysis system

scientific article
Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters

scientific article published in July 2014
Microbial species delineation using whole genome sequences

scientific article
IMG/M: the integrated metagenome data management and comparative analysis system

scientific article
IMG/M 4 version of the integrated metagenome comparative analysis system

scientific article published on 16 October 2013
The complete genome sequence of the algal symbiont Dinoroseobacter shibae: a hitchhiker's guide to life in the sea.

scientific article published on 10 September 2009
The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4).

scientific article
Complete genome sequence of Kytococcus sedentarius type strain (541).

scientific article
Complete genome sequence of DSM 30083(T), the type strain (U5/41(T)) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy

scientific article published in 2014
1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

scientific article published on 12 June 2017
Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations

scientific article published on 08 January 2016
Genomic potential of Marinobacter aquaeolei, a biogeochemical "opportunitroph"

scientific article
Large-scale contamination of microbial isolate genomes by Illumina PhiX control

scientific article published on 30 March 2015
Stop codon reassignments in the wild

scientific article
IMG-ABC: A Knowledge Base To Fuel Discovery of Biosynthetic Gene Clusters and Novel Secondary Metabolites

scientific article published on 14 July 2015
Genome sequence of "Candidatus Frankia datiscae" Dg1, the uncultured microsymbiont from nitrogen-fixing root nodules of the dicot Datisca glomerata

scientific article
The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)

scientific article published on 24 February 2016
Non-contiguous finished genome sequence and contextual data of the filamentous soil bacterium Ktedonobacter racemifer type strain (SOSP1-21).

scientific article
Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs

scientific article published on 27 January 2016
Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1(T)), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Spha

scientific article
Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034).

scientific article
Complete genome sequences for the anaerobic, extremely thermophilic plant biomass-degrading bacteria Caldicellulosiruptor hydrothermalis, Caldicellulosiruptor kristjanssonii, Caldicellulosiruptor kronotskyensis, Caldicellulosiruptor owensensis, and C

article
Complete genome sequence of Haliangium ochraceum type strain (SMP-2)

scientific article
ProDeGe: a computational protocol for fully automated decontamination of genomes

scientific article published on 9 June 2015
Complete genome sequence of Actinosynnema mirum type strain (101).

scientific article
The genome sequence of Methanohalophilus mahii SLP(T) reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments

scientific article
Draft genome sequence of Frankia sp. strain CN3, an atypical, noninfective (Nod-) ineffective (Fix-) isolate from Coriaria nepalensis

scientific article published on 14 March 2013
ClaMS: A Classifier for Metagenomic Sequences

scientific article
Draft genome sequence of Frankia sp. strain QA3, a nitrogen-fixing actinobacterium isolated from the root nodule of Alnus nitida

scientific article published on 21 March 2013
Complete genome sequence of Odoribacter splanchnicus type strain (1651/6).

scientific article
Draft Genome Sequence of Frankia sp. Strain BCU110501, a Nitrogen-Fixing Actinobacterium Isolated from Nodules of Discaria trinevis

scientific article
Complete genome sequence of Spirosoma linguale type strain (1)

scientific article
Draft Genome Sequence of Frankia sp. Strain BMG5.12, a Nitrogen-Fixing Actinobacterium Isolated from Tunisian Soils

scientific article published on 11 July 2013
Complete genome sequence of Geodermatophilus obscurus type strain (G-20)

scientific article
Complete genome sequence of "Thioalkalivibrio sulfidophilus" HL-EbGr7.

scientific article
Complete genome sequence of Arcobacter nitrofigilis type strain (CI)

scientific article
Complete genome sequence of Sulfurimonas autotrophica type strain (OK10).

scientific article
Complete genome sequences of Desulfosporosinus orientis DSM765T, Desulfosporosinus youngiae DSM17734T, Desulfosporosinus meridiei DSM13257T, and Desulfosporosinus acidiphilus DSM22704T

scientific article
Complete genome sequence of Isosphaera pallida type strain (IS1B).

scientific article
Complete genome sequence of Nitrosomonas sp. Is79, an ammonia oxidizing bacterium adapted to low ammonium concentrations

scientific article published on 25 February 2013
Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255).

scientific article
Complete genome sequence of Desulfobulbus propionicus type strain (1pr3)

scientific article
Complete genome sequence of Planctomyces limnophilus type strain (Mü 290).

scientific article
Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575)

scientific article
Complete genome sequence of Haloterrigena turkmenica type strain (4k)

scientific article
Complete genome sequence of Halomicrobium mukohataei type strain (arg-2)

scientific article
Complete genome sequence of Meiothermus ruber type strain (21)

scientific article

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